Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2348
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 201963
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Found at i:1159 original size:23 final size:22
Alignment explanation
Indices: 1133--1195 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 22
1123 TTTTTGTGTT
1133 AAATATGTAATATAAATATAATA
1 AAATAT-TAATATAAATATAATA
*
1156 AAATTATTAAT-T--ATATTATA
1 AAA-TATTAATATAAATATAATA
*
1176 AAATCTTAAATATAAATATA
1 AAATATT-AATATAAATATA
1196 CTATGTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 1 0.03
22 1 0.03
23 11 0.34
24 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATTAATATAAATATAATA
Found at i:1246 original size:21 final size:22
Alignment explanation
Indices: 1207--1247 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1197 TATGTATTTA
1207 TAAATATTACATTAATTATATT
1 TAAATATTACATTAATTATATT
1229 TAAAT-TTA-ATTGAATTATA
1 TAAATATTACATT-AATTATA
1248 CTTATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATATTACATTAATTATATT
Found at i:1480 original size:50 final size:50
Alignment explanation
Indices: 1405--1500 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
1395 GCTTGGAAGG
*
1405 AAGGTTGGACAAAGCATGTAAAAGAAAAGACAATTGAAAATGCTTAAAGA
1 AAGGATGGACAAAGCATGTAAAAGAAAAGACAATTGAAAATGCTTAAAGA
* *
1455 AAGGATGGACAAAGCATGTCAAAGAAAAGACAATTGAAGATGCTTA
1 AAGGATGGACAAAGCATGTAAAAGAAAAGACAATTGAAAATGCTTA
1501 TAGGTCCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (50 bp):
AAGGATGGACAAAGCATGTAAAAGAAAAGACAATTGAAAATGCTTAAAGA
Found at i:1683 original size:4 final size:4
Alignment explanation
Indices: 1674--1706 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1664 CCCAGCCCAC
1674 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA T
1 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA T
1707 GTTGTTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCA
Found at i:14085 original size:2 final size:2
Alignment explanation
Indices: 14078--14124 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14068 CTTTCAGGAC
14078 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14120 AT AT A
1 AT AT A
14125 CTTTTAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16469 original size:28 final size:28
Alignment explanation
Indices: 16437--16498 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
16427 AAGCCATTGG
16437 AAGAAAGATTGTCCAAAGCTGAATAAGA
1 AAGAAAGATTGTCCAAAGCTGAATAAGA
16465 AAGAAAGATTGTCCAAAGCTGAATAAGA
1 AAGAAAGATTGTCCAAAGCTGAATAAGA
16493 AAGAAA
1 AAGAAA
16499 AAGCTGCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (28 bp):
AAGAAAGATTGTCCAAAGCTGAATAAGA
Found at i:20872 original size:26 final size:27
Alignment explanation
Indices: 20810--20874 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
20800 GTTAGATATA
*
20810 TTAATTATTTTT-TTATTTTTTATTTT
1 TTAATTATTTTTATTATATTTTATTTT
*
20836 TT--TTACCTTTTATTATATTTTATTTT
1 TTAATTA-TTTTTATTATATTTTATTTT
20862 TTAATT-TTTTTAT
1 TTAATTATTTTTAT
20875 ATCCTGAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 23 0.72
28 2 0.06
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (27 bp):
TTAATTATTTTTATTATATTTTATTTT
Found at i:22554 original size:21 final size:21
Alignment explanation
Indices: 22504--22555 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
22494 TTTTAAATTG
*
22504 TTTATTTTTGTTAATCTTTTT
1 TTTATTTTTATTAATCTTTTT
*
22525 TCTT-GTTTTATTAAT-TTATTT
1 T-TTATTTTTATTAATCTT-TTT
22546 TTTATTTTTA
1 TTTATTTTTA
22556 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTATTTTTATTAATCTTTTT
Found at i:23197 original size:96 final size:96
Alignment explanation
Indices: 22838--24252 Score: 1375
Period size: 95 Copynumber: 14.8 Consensus size: 96
22828 ATAAAAGAAT
* *
22838 GCAACTATATTTTTTTTTGCACGAAA-TTCATTAAAAATG-CCTACTAATTTATT-AGATTATAC
1 GCAACCATATTTTTTTTT-CA--AAATTTCATTAAAAATGACC-ACTCATTTATTGA-ATTATAC
* * * *
22900 TTTAATGTAAACCTCACCTCATACGTTTGATAAAAT
61 TTTAATATAAAACTTACCTCATACGTTTGATAAAAG
* ** * * *
22936 GTAGTCATGTTTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAATTATACTTTA
1 GCAACCAT-ATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTA
* *
23001 ATATAAAACTTA-CT-ATACACATTTGATAAAAA
65 ATATAAAACTTACCTCAT--ACGTTTGATAAAAG
* * *** *
23033 GTAGCCATA-TTTTTTAAAAAAATTTCATTAAAAAGGACCACTCATTTATTGAATTATACTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* ** *
23097 TATAAACCTTACCTCATATATTAGATAAAAG
66 TATAAAACTTACCTCATACGTTTGATAAAAG
23128 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCA-TGCATTTATTGAATTATACTTTA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACT-CATTTATTGAATTATACTTTA
* ** *
23192 ATATAAAACTTACCACACGCGTGTGATAAAAG
65 ATATAAAACTTACCTCATACGTTTGATAAAAG
* * * * *
23224 GTAGCCAT-TTTTTTTTTCCGAAATTTCATTAAAAAAGACTACTCATTTATTGAATTATACTTTA
1 GCAACCATATTTTTTTTT-CAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTA
* ** *
23288 ATATAAACCCCATCGT-ATACGTTTGATAAAAG
65 ATATAAAACTTA-CCTCATACGTTTGATAAAAG
* * *
23320 GCAACCATATTTTTTTTTTTTCAAAATTTTATTAAAAATGGCCATTCATTTATTGAATTATACTT
1 GCAACCATA---TTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTT
* * ** *
23385 TAATATAAAACTTGCCGCACGCATTTGATAAAAG
63 TAATATAAAACTTACCTCATACGTTTGATAAAAG
* * * * * * *
23419 ACAACCATA-TTTTTTTCCAAAATTTCATT-CAAAGGATCACTTATTTATTGAATTATATTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* **
23482 TATAAATCCCACCTCATAC----GATAAAAG
66 TATAAAACTTACCTCATACGTTTGATAAAAG
* *
23509 GCAACTATACTTTTTTTTTCAAAATTTCATTAAAAATGACTACTCATTTATTGAATTATACTTTA
1 GCAACCATA-TTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTA
* * ** *
23574 ATATAAAACTTGCCGCACGCGTTTGACAAAAG
65 ATATAAAACTTACCTCATACGTTTGATAAAAG
* * * * * *
23606 ACAACCATA-GTTTTTTCCAAAATTTCATTAAAAAGGACCACTTATTTTTTGAATTATACTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* ** *
23670 TATAAACCCCACCTCATACGTTTGACAAAAG
66 TATAAAACTTACCTCATACGTTTGATAAAAG
* * * * * *
23701 GCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAGGACTACTTATTTATTGAATTATACTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* *
23766 TAT-AAACTCCATCTCATACGTTTGATAAAAG
66 TATAAAACT-TACCTCATACGTTTGATAAAAG
* ** * * * * * *
23797 ACGTCCATAATTTTTTTCCAAAATTTCATTAAAAATAATCACTCATTTATTAAATTATACTTTAC
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* ** *
23862 TATAAAACTTACCACACGCGTTTGGTAAAAG
66 TATAAAACTTACCTCATACGTTTGATAAAAG
* * *
23893 GCAGCCATA-TTTTTTTTCAAAATTTCATTAAAAAGGACTACTCATTTATTGAATTATACTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* * *
23957 TATAAACCTCATCTCATACGTTTGATAAAAG
66 TATAAAACTTACCTCATACGTTTGATAAAAG
* * * *
23988 GTAACCATA-TTATTTTTCAAAACTTCATTAAAAATGATCACTCATTTATTGAATTATACTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* * ** * *
24052 TATAAAACTTGCCGCACGCGTTTAATAAAAT
66 TATAAAACTTACCTCATACGTTTGATAAAAG
* * * * * *
24083 GTAACCATA-TTTTTTTTCAAAATTTTATTAAAAAAGACCACTTATTTATTAAATTATATTTTAA
1 GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
* * *
24147 TAT-AAACTCCACTTCATACGTTTGATAAAAA
66 TATAAAACT-TACCTCATACGTTTGATAAAAG
* ** * * * *
24178 GTAATTATATTATTTTTTT--AAATTTAATTAAAAAT-ATCACTCATTTATTAAATTATATTTTA
1 GCAACCATATT-TTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTA
24240 ATATAAAACTTAC
65 ATATAAAACTTAC
24253 TGCAAGTATT
Statistics
Matches: 1087, Mismatches: 198, Indels: 68
0.80 0.15 0.05
Matches are distributed among these distances:
90 15 0.01
92 19 0.02
93 40 0.04
94 75 0.07
95 441 0.41
96 310 0.29
97 91 0.08
98 9 0.01
99 78 0.07
100 9 0.01
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.39
Consensus pattern (96 bp):
GCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATACTTTAA
TATAAAACTTACCTCATACGTTTGATAAAAG
Found at i:23751 original size:477 final size:473
Alignment explanation
Indices: 22947--24176 Score: 1513
Period size: 477 Copynumber: 2.6 Consensus size: 473
22937 TAGTCATGTT
* * * *
22947 TTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAATTATACTTTAATATAAAACTT
1 TTTTTTTCCAAAATTTCATTAAAAAGGACTACTCATTTATTGAATTATACTTTAATATAAACCTC
* * * * * * ** * *
23012 ACTATACACATTTGATAAAAAGTAGCCATATT-TTTTAAAAAAATTTCATTAAAAAGGACCACTC
66 AC-CT-CATA-CTGATAAAAGGCAACCATATTATTTT-TCAAAATTTCATTAAAAATGACTACTC
* * * **** *
23076 ATTTATTGAATTATACTTTAATATAAACCTTACCTCATATATTAGATAAAAGGCAACCATATTTT
127 ATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTGATAAAA-GCAACCATA-TTT
* * * **
23141 TTTTTCAAAATTTCATTAAAAATGACCA-TGCATTTATTGAATTATACTTTAATATAAAACTTAC
190 TTTTTCAAAATTTCATTAAAAAAGACCACT-TATTTATTGAATTATACTTTAATATAAACCCCAC
* ** * * ** *
23205 CACACGCGTGTGATAAAAGGTAGCCATTTTTTTTTTCCGAAATTTCATTAAAAAAGACTACTCAT
254 CTCATACGTTTGATAAAAGGCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAAGACTACTCAT
* *
23270 TTATTGAATTATACTTTAATATAAACCCCATCGT-ATACGTTTGATAAAAGGCAACCATATTTTT
319 TTATTGAATTATACTTTAATATAAACCCCATC-TCATACGTTTGATAAAAGACAACCATA---AT
* * ** * * *
23334 TTTTTTTCAAAATTTTATTAAAAATGGCCATTCATTTATTGAATTATACTTTAATATAAAACTTG
380 TTTTTTCCAAAATTTCATTAAAAATAACCACTCATTTATTAAATTATACTTTAATATAAAACTTA
*
23399 CCGCACGCATTTGATAAAAGACAACCATA
445 CCACACGCATTTGATAAAAGACAACCATA
* * *
23428 TTTTTTTCCAAAATTTCATT-CAAAGGA-TCACTTATTTATTGAATTATATTTTAATATAAATCC
1 TTTTTTTCCAAAATTTCATTAAAAAGGACT-ACTCATTTATTGAATTATACTTTAATATAAA-CC
* *
23491 -CACCTCATAC-GATAAAAGGCAACTATACTTTTTTTTTCAAAATTTCATTAAAAATGACTACTC
64 TCACCTCATACTGATAAAAGGCAACCATA--TTATTTTTCAAAATTTCATTAAAAATGACTACTC
* *
23554 ATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTGACAAAAGACAACCATAGTTT
127 ATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTGATAAAAG-CAACCATATTTT
* * *
23619 TTTCCAAAATTTCATTAAAAAGGACCACTTATTTTTTGAATTATACTTTAATATAAACCCCACCT
191 TTTTCAAAATTTCATTAAAAAAGACCACTTATTTATTGAATTATACTTTAATATAAACCCCACCT
* * *
23684 CATACGTTTGACAAAAGGCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAGGACTACTTATTT
256 CATACGTTTGATAAAAGGCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAAGACTACTCATTT
* **
23749 ATTGAATTATACTTTAATATAAACTCCATCTCATACGTTTGATAAAAGACGTCCATAATTTTTTT
321 ATTGAATTATACTTTAATATAAACCCCATCTCATACGTTTGATAAAAGACAACCATAATTTTTTT
* *
23814 CCAAAATTTCATTAAAAATAATCACTCATTTATTAAATTATACTTTACTATAAAACTTACCACAC
386 CCAAAATTTCATTAAAAATAACCACTCATTTATTAAATTATACTTTAATATAAAACTTACCACAC
* * * *
23879 GCGTTTGGTAAAAGGCAGCCATA
451 GCATTTGATAAAAGACAACCATA
*
23902 TTTTTTTTCAAAATTTCATTAAAAAGGACTACTCATTTATTGAATTATACTTTAATATAAACCTC
1 TTTTTTTCCAAAATTTCATTAAAAAGGACTACTCATTTATTGAATTATACTTTAATATAAACCTC
* * *
23967 ATCTCATACGTTTGATAAAAGGTAACCATATTATTTTTCAAAACTTCATTAAAAATGA-TCACTC
66 ACCTCATAC---TGATAAAAGGCAACCATATTATTTTTCAAAATTTCATTAAAAATGACT-ACTC
* *
24031 ATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTAATAAAATGTAACCATATTTT
127 ATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTGATAAAA-GCAACCATATTTT
* * * * *
24096 TTTTCAAAATTTTATTAAAAAAGACCACTTATTTATTAAATTATATTTTAATATAAACTCCACTT
191 TTTTCAAAATTTCATTAAAAAAGACCACTTATTTATTGAATTATACTTTAATATAAACCCCACCT
24161 CATACGTTTGATAAAA
256 CATACGTTTGATAAAA
24177 AGTAATTATA
Statistics
Matches: 645, Mismatches: 87, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
474 102 0.16
475 44 0.07
476 16 0.02
477 326 0.51
478 80 0.12
479 21 0.03
480 36 0.06
481 20 0.03
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (473 bp):
TTTTTTTCCAAAATTTCATTAAAAAGGACTACTCATTTATTGAATTATACTTTAATATAAACCTC
ACCTCATACTGATAAAAGGCAACCATATTATTTTTCAAAATTTCATTAAAAATGACTACTCATTT
ATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTGATAAAAGCAACCATATTTTTTTTC
AAAATTTCATTAAAAAAGACCACTTATTTATTGAATTATACTTTAATATAAACCCCACCTCATAC
GTTTGATAAAAGGCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAAGACTACTCATTTATTGA
ATTATACTTTAATATAAACCCCATCTCATACGTTTGATAAAAGACAACCATAATTTTTTTCCAAA
ATTTCATTAAAAATAACCACTCATTTATTAAATTATACTTTAATATAAAACTTACCACACGCATT
TGATAAAAGACAACCATA
Found at i:24098 original size:573 final size:570
Alignment explanation
Indices: 22864--24152 Score: 1453
Period size: 573 Copynumber: 2.2 Consensus size: 570
22854 TTGCACGAAA
* * * * *
22864 TTCATTAAAAATG-CCTACTAATTTATT-AGATTATACTTTAATGTAAACCTCACCTCATACGTT
1 TTCATTAAAAATGATC-ACTAATTTATTGA-ATTATACTTTAATATAAAACT-TCC-CA-CCGTT
* ** *
22927 TGATAAAATGTAGTCATGTTTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAAT
61 TAATAAAATGTAACCAT-ATTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAAT
* * * * *
22992 TATACTTTAATATAAAACTTACTATACACATTTGATAAAAAGTAGCCATATTTTTTAAAAAAATT
125 TATACTTTAATATAAAACTTACCACACACATTTGACAAAAAGCAACCATATTTTTTAAAAAAATT
** *
23057 TCATTAAAAAGGACCACTCATTTATTGAATTATACTTTAATATAAACCTTACCTCATATATTAGA
190 TCATTAAAAAGGACCACTCATTTATTGAATTATACTTTAATATAAACCCCACCTCATACATTAGA
* * * *
23122 TAAAAGGCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGACCATGCATTTATTGAATTATA
255 CAAAAGGCAACCATAATTTTTTTCCAAAATTTCATTAAAAAGGACCATGCATTTATTGAATTATA
* * ** *
23187 CTTTAATATAAAACTTACCACACGCGTGTGATAAAAGGTAGCCATTTTTTTTTTCCGAAATTTCA
320 CTTTAATATAAAACTCACCACACACGTGTGATAAAAGGTA-CCATAATTTTTTTCCAAAATTTCA
* * * ** *
23252 TTAAAAAAGACTACTCATTTATTGAATTATACTTTAATATAAACCCCATCGTATACGTTTGATAA
384 TTAAAAAAGACTACTCATTTATTAAATTATACTTTAATATAAAACCCACCACACACGTTTGATAA
* *
23317 AAGGCAACCATATTTTTTTTTTTTCAAAATTTTATTAAAAATGGCCATTCATTTATTGAATTATA
449 AAGGCAACCATA---TTTTTTTTTCAAAATTTCATTAAAAATGGCCACTCATTTATTGAATTATA
** * *
23382 CTTTAATATAAAACTTGCCGCACGCATTTGATAAAAGACAACCATATTTTTTTCCAAAAT
511 CTTTAATATAAAACTCACCGCACACATTTGATAAAAGACAACCATATTTTTTTCCAAAAC
* * * * *
23442 TTCATT-CAAAGGATCACTTATTTATTGAATTATATTTTAATAT-AAA--TCCCACC-TCATACG
1 TTCATTAAAAATGATCACTAATTTATTGAATTATACTTTAATATAAAACTTCCCACCGT-TTA--
* * * *
23502 ATAAAAGGCAACTATACTTTTTTTTTCAAAATTTCATTAAAAATGACTACTCATTTATTGAATTA
63 ATAAAATGTAACCATA-TTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAATTA
* * * * **
23567 TACTTTAATATAAAACTTGCCGCACGCGTTTGAC-AAAAGACAACCATAGTTTTTT-CCAAAATT
127 TACTTTAATATAAAACTTACCACACACATTTGACAAAAAG-CAACCATA-TTTTTTAAAAAAATT
* * * *
23630 TCATTAAAAAGGACCACTTATTTTTTGAATTATACTTTAATATAAACCCCACCTCATACGTTTGA
190 TCATTAAAAAGGACCACTCATTTATTGAATTATACTTTAATATAAACCCCACCTCATACATTAGA
* * *
23695 CAAAAGGCAGCCATAATTTTTTTCCAAAATTTCATTAAAAAGGACTACT-TATTTATTGAATTAT
255 CAAAAGGCAACCATAATTTTTTTCCAAAATTTCATTAAAAAGGACCA-TGCATTTATTGAATTAT
* * * *
23759 ACTTTAATAT-AAACTCCATCTCATACGTTTGATAAAAGACGT-CCATAATTTTTTTCCAAAATT
319 ACTTTAATATAAAACT-CACCACACACGTGTGATAAAAG--GTACCATAATTTTTTTCCAAAATT
* ** *
23822 TCATTAAAAATA-A-TCACTCATTTATTAAATTATACTTTACTATAAAACTTACCACACGCGTTT
381 TCATTAAAAA-AGACT-ACTCATTTATTAAATTATACTTTAATATAAAACCCACCACACACGTTT
* * *
23885 GGTAAAAGGCAGCCATA-TTTTTTTTCAAAATTTCATTAAAAA-GGACTACTCATTTATTGAATT
444 GATAAAAGGCAACCATATTTTTTTTTCAAAATTTCATTAAAAATGG-CCACTCATTTATTGAATT
* * * * * **
23948 ATACTTTAATATAAACCTCATCTCATACGTTTGATAAAAGGTAACCATATTATTTTT-CAAAAC
508 ATACTTTAATATAAAACTCACCGCACACATTTGATAAAAGACAACCATATT-TTTTTCCAAAAC
*
24011 TTCATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGCACGCGTTTA
1 TTCATTAAAAATGATCACTAATTTATTGAATTATACTTTAATATAAAACTT-CC-CAC-CGTTTA
* * * *
24076 ATAAAATGTAACCATA-TTTTTTTTCAAAATTTTATTAAAAAAGACCACTTATTTATTAAATTAT
63 ATAAAATGTAACCATATTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAATTAT
*
24140 ATTTTAATATAAA
128 ACTTTAATATAAA
24153 CTCCACTTCA
Statistics
Matches: 595, Mismatches: 92, Indels: 54
0.80 0.12 0.07
Matches are distributed among these distances:
568 2 0.00
569 92 0.15
570 39 0.07
571 5 0.01
572 68 0.11
573 320 0.54
574 23 0.04
575 5 0.01
576 5 0.01
577 28 0.05
578 8 0.01
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (570 bp):
TTCATTAAAAATGATCACTAATTTATTGAATTATACTTTAATATAAAACTTCCCACCGTTTAATA
AAATGTAACCATATTTTTTTTTCAAAATTTCATTAAAAAAGACTACTCATTTATTGAATTATACT
TTAATATAAAACTTACCACACACATTTGACAAAAAGCAACCATATTTTTTAAAAAAATTTCATTA
AAAAGGACCACTCATTTATTGAATTATACTTTAATATAAACCCCACCTCATACATTAGACAAAAG
GCAACCATAATTTTTTTCCAAAATTTCATTAAAAAGGACCATGCATTTATTGAATTATACTTTAA
TATAAAACTCACCACACACGTGTGATAAAAGGTACCATAATTTTTTTCCAAAATTTCATTAAAAA
AGACTACTCATTTATTAAATTATACTTTAATATAAAACCCACCACACACGTTTGATAAAAGGCAA
CCATATTTTTTTTTCAAAATTTCATTAAAAATGGCCACTCATTTATTGAATTATACTTTAATATA
AAACTCACCGCACACATTTGATAAAAGACAACCATATTTTTTTCCAAAAC
Found at i:26383 original size:12 final size:12
Alignment explanation
Indices: 26356--26391 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
26346 TCCTTTTTTC
26356 AATTATTTTTAT
1 AATTATTTTTAT
26368 --TTATTTTTAT
1 AATTATTTTTAT
26378 AATTATTTTTAT
1 AATTATTTTTAT
26390 AA
1 AA
26392 AAAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
AATTATTTTTAT
Found at i:30082 original size:34 final size:34
Alignment explanation
Indices: 30043--30124 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
30033 ATATACATGT
30043 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
30077 TAACACACCTAACATTCTCACCAAATACATCACT
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
30111 TAACATACCTAACA
1 TAACACACCTAACA
30125 CACTTAACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:31874 original size:13 final size:13
Alignment explanation
Indices: 31856--31880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31846 ACACCAAGTA
31856 TGTATCGATACAT
1 TGTATCGATACAT
31869 TGTATCGATACA
1 TGTATCGATACA
31881 CCAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31877 original size:32 final size:34
Alignment explanation
Indices: 31836--31904 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 34
31826 GTAGCCAAAC
**
31836 TTGTATCGATACACC-AAGTA-TGTATCGATACA
1 TTGTATCGATACACCAAAAAATTGTATCGATACA
31868 TTGTATCGATACACCAAAAAATTGTATCGATACA
1 TTGTATCGATACACCAAAAAATTGTATCGATACA
31902 TTG
1 TTG
31905 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 15 0.45
33 3 0.09
34 15 0.45
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (34 bp):
TTGTATCGATACACCAAAAAATTGTATCGATACA
Found at i:31966 original size:20 final size:22
Alignment explanation
Indices: 31935--31978 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
31925 GCTATATTTT
31935 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
31956 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
31977 CA
1 CA
31979 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:37830 original size:17 final size:18
Alignment explanation
Indices: 37791--37830 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37781 TTGATGATTT
*
37791 ATTTGATTAATTTTTGTG
1 ATTTGAGTAATTTTTGTG
37809 A-TTGAGTAA-TTTTGTG
1 ATTTGAGTAATTTTTGTG
37825 ATTTGA
1 ATTTGA
37831 TGTTGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (18 bp):
ATTTGAGTAATTTTTGTG
Found at i:38043 original size:13 final size:13
Alignment explanation
Indices: 38025--38063 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
38015 ACATTTTTCT
38025 TTGTATCGATACA
1 TTGTATCGATACA
38038 TTGTATCGATACA
1 TTGTATCGATACA
*
38051 CTGTATCGATACA
1 TTGTATCGATACA
38064 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:38227 original size:20 final size:20
Alignment explanation
Indices: 38184--38229 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
38174 AAATCTTTTA
38184 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
38205 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
38225 CAAAA
1 CAAAA
38230 CCTGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:40638 original size:13 final size:13
Alignment explanation
Indices: 40620--40644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40610 ACACCAAGTA
40620 TGTATCGATACAT
1 TGTATCGATACAT
40633 TGTATCGATACA
1 TGTATCGATACA
40645 CCAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40641 original size:32 final size:34
Alignment explanation
Indices: 40600--40668 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 34
40590 GTAGCCAAAC
**
40600 TTGTATCGATACACC-AAGTA-TGTATCGATACA
1 TTGTATCGATACACCAAAAAATTGTATCGATACA
40632 TTGTATCGATACACCAAAAAATTGTATCGATACA
1 TTGTATCGATACACCAAAAAATTGTATCGATACA
40666 TTG
1 TTG
40669 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 15 0.45
33 3 0.09
34 15 0.45
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (34 bp):
TTGTATCGATACACCAAAAAATTGTATCGATACA
Found at i:40730 original size:20 final size:22
Alignment explanation
Indices: 40699--40742 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
40689 GCTATATTTT
40699 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
40720 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
40741 CA
1 CA
40743 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:44773 original size:34 final size:34
Alignment explanation
Indices: 44734--44874 Score: 210
Period size: 34 Copynumber: 4.4 Consensus size: 34
44724 ATATACATGT
44734 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
44768 TAACACACCTAACATTCTCACCAAAT--A-CA--
1 TAACACACCTAACATTCTCACCAAATACATCACC
44797 T----CACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
44827 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
44861 TAACATACCTAACA
1 TAACACACCTAACA
44875 CACTTAACAA
Statistics
Matches: 97, Mismatches: 1, Indels: 18
0.84 0.01 0.16
Matches are distributed among these distances:
25 21 0.22
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 2 0.02
32 1 0.01
34 68 0.70
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:44802 original size:25 final size:25
Alignment explanation
Indices: 44773--44831 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
44763 TCACCTAACA
44773 CACCTAACATTCTCACCAAATACAT
1 CACCTAACATTCTCACCAAATACAT
44798 CACCTAACATTCTCACCAAATACAT
1 CACCTAACATTCTCACCAAATACAT
44823 CACCTAACA
1 CACCTAACA
44832 CACCTAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (25 bp):
CACCTAACATTCTCACCAAATACAT
Found at i:44831 original size:59 final size:59
Alignment explanation
Indices: 44739--44866 Score: 256
Period size: 59 Copynumber: 2.2 Consensus size: 59
44729 CATGTTAACA
44739 CACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAATACAT
1 CACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAATACAT
44798 CACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAATACAT
1 CACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAATACAT
44857 CACCTAACAT
1 CACCTAACAT
44867 ACCTAACACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (59 bp):
CACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAATACAT
Found at i:46424 original size:2 final size:2
Alignment explanation
Indices: 46417--46459 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
46407 GGTTTTCTTT
46417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46459 T
1 T
46460 TATTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46804 original size:192 final size:191
Alignment explanation
Indices: 46464--47626 Score: 1498
Period size: 192 Copynumber: 6.1 Consensus size: 191
46454 ATATATTATT
* * ** ** *
46464 TTTAATATAAACCTCACCTCATAGGTTTGATAAAAGAAAACCATATTTTTTTTCCAAAATTTTAT
1 TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATATTTTTTTTCCAAAATTTCAT
* * * * *
46529 TAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAATTTACCGCACACGTTTGATAAA
66 TAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAACTCACCTCATACGTTTGATAAA
** *
46594 AAACAGA-CATAGTTTTTTTCCAAAATTTCATT-AAAATGACCACTCATTTATTGAATTATAC
131 AGGCA-ACCATA-TTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* * * *
46655 TTTAATATAAACCCCACCTCATACGTTTGATAAAAGGCAGCCATATTTTTTTTTTCAAAATTTCA
1 TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATA-TTTTTTTTCCAAAATTTCA
* ** * *
46720 TTAAAAATGACCACTCATTTATTGAATTATATTTTAATATAAAACTTGCCGCACACGTTTGATAA
65 TTAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAACTCACCTCATACGTTTGATAA
*
46785 AAGGCAACCATATTTTTTTTCAAAATTTCATTAAAAAGGACCACTCATTTATTGAATTATAC
130 AAGGCAACCATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* *
46847 TTTAATATAAACCCCACCTCATACGTTTGATAAAAGGCAGTCATA-TTTTTTTCCAAAATTTCAT
1 TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATATTTTTTTTCCAAAATTTCAT
* * * *
46911 TAAAATAAGACTACTTATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAA
66 TAAAA-ATGACCACTCATTTATTGAATTATACTTTAATATAAAACTCACCTCATACGTTTGATAA
* * * *
46976 AAGGCAGCCATACTTTTTTTCCAAAATTTCATTATAAATGGCCACTCATTTATTGAATTATAC
130 AAGGCAACCATA-TTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* ** * ** * *
47039 TTTACTATAAAACTTGCCACACGCGTTTGATAAAAGGCAGTTATATTTTTTTTTCTAAAATTTCA
1 TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATA-TTTTTTTTCCAAAATTTCA
* * *
47104 TTAAAAATGACTACTCATTTATTGAATTATACTTTAATAT-AAACGTCACCTTATACGTTTAATA
65 TTAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAAC-TCACCTCATACGTTTGATA
* *
47168 AAAGGCAACTATA-TTTTTTTCAAAATTTAATTAAAAATGACCACTCATTTATTGAATTATAC
129 AAAGGCAACCATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
** * ** * *
47230 TTTAATATAAAACTTGCCGCACGCGTTTGATAAAAGGCAATCATA-GTTTTTTCCAAAATTTCAT
1 TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATATTTTTTTTCCAAAATTTCAT
* ** * * * *
47294 TAAAAAGGATTACTCATTTATTGAATTATACTTTAATATAAACCCCACCTTATACGTTTCATAAA
66 TAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAACTCACCTCATACGTTTGATAAA
* * *
47359 AAGCAACCATATTTTTTTTTTCAAAAGTTAATTAAAAATGACCACTCATTTATTGAATTATAC
131 AGGCAACCATA--TTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* * * *
47422 TTTTATATAAAACTTACCGCA-AGCGTTTGATAAAAGGCAGTCATA-TTTTTTTCTAAAATTTCA
1 TTTAATATAAAACTCACCTCATA-CGTTTGATAAAAGGCAGTCATATTTTTTTTCCAAAATTTCA
* *
47485 TTAAAAATGACCACTTATTTATTGAATTCTACTTTAATAT-AAACTCTACCTCATACGTTTGATA
65 TTAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAACTC-ACCTCATACGTTTGATA
* *
47549 AAAGGCAATCATATTGTTTTTTCAAAATTTCATTAAAAATGATCACTCATTTATTGAATTATAC
129 AAAGGCAACCATATT-TTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
47613 TTTAATATAAAACT
1 TTTAATATAAAACT
47627 TACTGTAAGT
Statistics
Matches: 870, Mismatches: 87, Indels: 30
0.88 0.09 0.03
Matches are distributed among these distances:
189 82 0.09
190 28 0.03
191 269 0.31
192 408 0.47
193 60 0.07
194 23 0.03
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (191 bp):
TTTAATATAAAACTCACCTCATACGTTTGATAAAAGGCAGTCATATTTTTTTTCCAAAATTTCAT
TAAAAATGACCACTCATTTATTGAATTATACTTTAATATAAAACTCACCTCATACGTTTGATAAA
AGGCAACCATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
Found at i:47191 original size:383 final size:379
Alignment explanation
Indices: 46464--47623 Score: 1594
Period size: 383 Copynumber: 3.0 Consensus size: 379
46454 ATATATTATT
* ** * *
46464 TTTAATATAAACCTCACCTCATAGGTTTGATAAAAGAAAACCATATTTTTTTTCCAAAATTTTAT
1 TTTAATATAAACCTCACCTCATACGTTTGATAAAAGGCAATCATA-TTTTTTTCCAAAATTTCAT
* ** * * *
46529 TAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAATTTACCGCACACGTTTGATAAA
65 TAAAAAAGAT-ACTCATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAAA
* * *
46594 AAACAGACATAGTTTTTTTCCAAAATTTCATTAAAATGACCACTCATTTATTGAATTATACTTTA
129 AAGCAGCCATACTTTTTTTCCAAAATTTCATTAAAATGACCACTCATTTATTGAATTATACTTT-
* ** * *
46659 ATATAAACCCCACCTCATA-CGTTTGATAAAAGGCAGCCATATTTTTTTTT-TCAAAATTTCATT
193 ATATAAAACTTACCACA-AGCGTTTGATAAAAGGCAGTCATATTTTTTTTTCT-AAAATTTCATT
* ** * *
46722 AAAAATGACCACTCATTTATTGAATTATATTTTAATATAAAACTTGCCGCACACGTTTGATAAAA
256 AAAAATGACCACTCATTTATTGAATTATACTTTAATAT-AAACTCACCTCATACGTTTGATAAAA
* *
46787 GGCAACCATATTTTTTTTCAAAATTTCATTAAAAAGGACCACTCATTTATTGAATTATAC
320 GGCAACTATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* *
46847 TTTAATATAAACCCCACCTCATACGTTTGATAAAAGGCAGTCATATTTTTTTCCAAAATTTCATT
1 TTTAATATAAACCTCACCTCATACGTTTGATAAAAGGCAATCATATTTTTTTCCAAAATTTCATT
*
46912 AAAATAAGACTACTTATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAAA
66 AAAA-AAGA-TACTCATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAAA
* *
46977 AGGCAGCCATACTTTTTTTCCAAAATTTCATTATAAATGGCCACTCATTTATTGAATTATACTTT
129 AAGCAGCCATACTTTTTTTCCAAAATTTCATTA-AAATGACCACTCATTTATTGAATTATACTTT
* * *
47042 ACTATAAAACTTGCCACACGCGTTTGATAAAAGGCAGTTATATTTTTTTTTCTAAAATTTCATTA
193 A-TATAAAACTTACCACAAGCGTTTGATAAAAGGCAGTCATATTTTTTTTTCTAAAATTTCATTA
* * *
47107 AAAATGACTACTCATTTATTGAATTATACTTTAATATAAACGTCACCTTATACGTTTAATAAAAG
257 AAAATGACCACTCATTTATTGAATTATACTTTAATATAAAC-TCACCTCATACGTTTGATAAAAG
*
47172 GCAACTATA-TTTTTTTCAAAATTTAATTAAAAATGACCACTCATTTATTGAATTATAC
321 GCAACTATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
* ** * ** *
47230 TTTAATATAAAACTTGCCGCACGCGTTTGATAAAAGGCAATCATAGTTTTTTCCAAAATTTCATT
1 TTTAATATAAACCTCACCTCATACGTTTGATAAAAGGCAATCATATTTTTTTCCAAAATTTCATT
* * * *
47295 AAAAAGGATTACTCATTTATTGAATTATACTTTAATATAAACCCCACCTTATACGTTTCATAAAA
66 AAAAAAGA-TACTCATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAAAA
* * * * *
47360 AGCAACCATATTTTTTTTTTCAAAAGTTAATTAAAAATGACCACTCATTTATTGAATTATACTTT
130 AGCAGCCATA-CTTTTTTTCCAAAATTTCATT-AAAATGACCACTCATTTATTGAATTATAC-TT
*
47425 TATATAAAACTTACCGCAAGCGTTTGATAAAAGGCAGTCATA--TTTTTTTCTAAAATTTCATTA
192 TATATAAAACTTACCACAAGCGTTTGATAAAAGGCAGTCATATTTTTTTTTCTAAAATTTCATTA
* *
47488 AAAATGACCACTTATTTATTGAATTCTACTTTAATATAAACTCTACCTCATACGTTTGATAAAAG
257 AAAATGACCACTCATTTATTGAATTATACTTTAATATAAACTC-ACCTCATACGTTTGATAAAAG
*
47553 GCAA-TCATATTGTTTTTTCAAAATTTCATTAAAAATGATCACTCATTTATTGAATTATAC
321 GCAACT-ATATT-TTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
47613 TTTAATATAAA
1 TTTAATATAAA
47624 ACTTACTGTA
Statistics
Matches: 692, Mismatches: 71, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
380 3 0.00
381 85 0.12
382 87 0.13
383 368 0.53
384 148 0.21
385 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (379 bp):
TTTAATATAAACCTCACCTCATACGTTTGATAAAAGGCAATCATATTTTTTTCCAAAATTTCATT
AAAAAAGATACTCATTTATTGAATTATACTTTAATATAAACCTCACCTCATACGTTTGATAAAAA
GCAGCCATACTTTTTTTCCAAAATTTCATTAAAATGACCACTCATTTATTGAATTATACTTTATA
TAAAACTTACCACAAGCGTTTGATAAAAGGCAGTCATATTTTTTTTTCTAAAATTTCATTAAAAA
TGACCACTCATTTATTGAATTATACTTTAATATAAACTCACCTCATACGTTTGATAAAAGGCAAC
TATATTTTTTTTCAAAATTTCATTAAAAATGACCACTCATTTATTGAATTATAC
Found at i:49079 original size:13 final size:14
Alignment explanation
Indices: 49049--49079 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49039 TTGGTCTATA
49049 TATTTATACATCTT
1 TATTTATACATCTT
49063 TATTTATACAT-TT
1 TATTTATACATCTT
49076 TATT
1 TATT
49080 AAAATTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATACATCTT
Found at i:51009 original size:34 final size:34
Alignment explanation
Indices: 50963--51147 Score: 257
Period size: 34 Copynumber: 5.5 Consensus size: 34
50953 GTAAAAACCA
*
50963 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
50997 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
51031 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
51065 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
51099 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
51132 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
51148 TCTCCCACTT
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.13
34 113 0.84
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:55240 original size:19 final size:19
Alignment explanation
Indices: 55213--55275 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
55203 TCACGTGTAC
* *
55213 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
55232 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
55251 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
55270 AGTACC
1 AGTACC
55276 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:55626 original size:34 final size:34
Alignment explanation
Indices: 55580--55762 Score: 253
Period size: 34 Copynumber: 5.4 Consensus size: 34
55570 GTAAAAACCA
*
55580 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
55614 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
55648 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
55682 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
55716 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
55749 CCATTTAATCAACA
1 CCATTTAATCAACA
55763 CATTTGTCGT
Statistics
Matches: 133, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
33 16 0.12
34 113 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:58581 original size:36 final size:36
Alignment explanation
Indices: 58534--58605 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
58524 ATAACAAAGC
*
58534 TAATAAAGAATGGGACCATTCAGGCGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
58570 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
58606 CTTTGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.17
Consensus pattern (36 bp):
TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
Found at i:61733 original size:16 final size:17
Alignment explanation
Indices: 61698--61737 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
61688 TTCTTTGGTA
61698 AAAAATAAAAGAAAAAGG
1 AAAAA-AAAAGAAAAAGG
*
61716 AAAAAAAAAG-AAATGG
1 AAAAAAAAAGAAAAAGG
61732 AAAAAA
1 AAAAAA
61738 GTAAAGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGG
Found at i:64598 original size:8 final size:8
Alignment explanation
Indices: 64585--64612 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
64575 CTTCATAATT
64585 TATACATA
1 TATACATA
64593 TATACATA
1 TATACATA
64601 TATACATA
1 TATACATA
64609 TATA
1 TATA
64613 TACATACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
TATACATA
Found at i:65110 original size:40 final size:40
Alignment explanation
Indices: 65055--65134 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
65045 TAGATTAGCA
65055 GTTAAGAAAAGATTTACTGCAAGTAACTCGTTACAAGAGT
1 GTTAAGAAAAGATTTACTGCAAGTAACTCGTTACAAGAGT
65095 GTTAAGAAAAGATTTACTGCAAGTAACTCGTTACAAGAGT
1 GTTAAGAAAAGATTTACTGCAAGTAACTCGTTACAAGAGT
65135 AGCAAAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (40 bp):
GTTAAGAAAAGATTTACTGCAAGTAACTCGTTACAAGAGT
Found at i:65694 original size:28 final size:31
Alignment explanation
Indices: 65630--65694 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 31
65620 CGTTTGATTT
* * *
65630 TAGCTTTCTATCATATCAATGTAGTTTGATTT
1 TAGCTTTCTATCATATCAAAGTAGGTTGA-TG
65662 TAGCTTTCTATCATATCAAAGT-GGTT-A-G
1 TAGCTTTCTATCATATCAAAGTAGGTTGATG
65690 TAGCT
1 TAGCT
65695 ATTTTACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
30 1 0.03
31 3 0.10
32 21 0.70
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (31 bp):
TAGCTTTCTATCATATCAAAGTAGGTTGATG
Found at i:70198 original size:12 final size:11
Alignment explanation
Indices: 70183--70224 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
70173 TTTTGTTCCT
70183 TTTTTTCAATTA
1 TTTTTT-AATTA
*
70195 -TTTTTATTTA
1 TTTTTTAATTA
70205 TTTTTATAATTA
1 TTTTT-TAATTA
70217 TTTTTTAA
1 TTTTTTAA
70225 AAAAGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 12 0.46
12 10 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:70815 original size:93 final size:95
Alignment explanation
Indices: 70645--70824 Score: 215
Period size: 93 Copynumber: 1.9 Consensus size: 95
70635 GCTATATTTA
* * *
70645 TTTTTCTCAAGAAATTCATTAAAAAAGTTCCACTCACTTGTTGGATTATACTTTAATGTAGAACT
1 TTTTTCTCAAGAAATTCATTAAAAAAGTTCCACTCACTTGTTAGATTATACTTTAATATAGAACG
* *
70710 CATTGTATTCGTTTGACAAAAAACAGTTATT
66 CATTGCACTCGTTTGA-AAAAAACAGTTATT
* * * * *
70741 TTTTTCTTAAGAAATTTATT-AAAAAG-T-CACTTATTTGTTAGATTATATTTTAATATA-AACG
1 TTTTTCTCAAGAAATTCATTAAAAAAGTTCCACTCACTTGTTAGATTATACTTTAATATAGAACG
*
70802 CTGTTGCACTCGTTTGAAAAAAA
66 C-ATTGCACTCGTTTGAAAAAAA
70825 TGCAACCATT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 10 0.14
93 37 0.51
94 1 0.01
95 6 0.08
96 18 0.25
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (95 bp):
TTTTTCTCAAGAAATTCATTAAAAAAGTTCCACTCACTTGTTAGATTATACTTTAATATAGAACG
CATTGCACTCGTTTGAAAAAAACAGTTATT
Found at i:72536 original size:29 final size:29
Alignment explanation
Indices: 72518--72577 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
72508 GTACTTTATG
*
72518 AATAACTACTTTTAATATATTTCAATTTT
1 AATAACTACTTTTAATATATGTCAATTTT
*
72547 AATAACTACTTTTAATATATTTCAATTTT
1 AATAACTACTTTTAATATATGTCAATTTT
72576 AA
1 AA
72578 CGGCCCGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (29 bp):
AATAACTACTTTTAATATATGTCAATTTT
Found at i:72546 original size:16 final size:16
Alignment explanation
Indices: 72527--72577 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
72517 GAATAACTAC
72527 TTTTAATATATTTCAA
1 TTTTAATATATTTCAA
* *
72543 TTTTAATA-A-CT-AC
1 TTTTAATATATTTCAA
72556 TTTTAATATATTTCAA
1 TTTTAATATATTTCAA
72572 TTTTAA
1 TTTTAA
72578 CGGCCCGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
15 2 0.07
16 15 0.54
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAATATATTTCAA
Found at i:77352 original size:96 final size:95
Alignment explanation
Indices: 77190--77694 Score: 475
Period size: 95 Copynumber: 5.3 Consensus size: 95
77180 TGGATAACTT
* * * **
77190 ATTTCTTAAATTATATTTTAATATAAATCCCACCTCATATC-TTTAATAAAAGGTAGT-CATAAT
1 ATTTATTAAATTATACTTTAATATAAACCCCACCTCATA-CGTTTAATAAAAGACA-TCCAT-AT
* * *
77253 TTTTTTTCAAAATTTCATTAAAAAAGATTATTT
63 TTTTTTTCAAAATTTCATTAAAAAAGATCACTC
* * *
77286 ATTTATTAAATTATATTTTAATATAAACCCCATCTCATACGTTTCATAAAAGACATCCATA-TTT
1 ATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTTAATAAAAGACATCCATATTTT
* *
77350 TTTTCTAAAATTTTATTAAAAATGATCACTC
66 TTTTC-AAAATTTCATTAAAAAAGATCACTC
* * * **** * ** * * *
77381 ATTTATTGAATTATACTTTATTATAAAACTTGTCACACGCGTCTAATAAAAGACAGCTATATTTT
1 ATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTTAATAAAAGACATCCATATTTT
* * *
77446 TCTTCCAAAATTTCATTAGAAAAGATTACTC
66 T-TTTCAAAATTTCATTAAAAAAGATCACTC
*
77477 ATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTTGATAAAAAGTA-A-CCATATT
1 ATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTTAAT-AAAAG-ACATCCATATT
* * *
77540 GTTTTTCAAAATTTTATTAAAAATGATCACTC
64 TTTTTTCAAAATTTCATTAAAAAAGATCACTC
* * *** * * * * *
77572 ATTTATTGAATTATACTTTAATATAAAACTTGCCGT-ACACATCTGATAAAAGGCAGT-CATATT
1 ATTTATTAAATTATACTTTAATATAAACCCCACC-TCATACGTTTAATAAAAGACA-TCCATATT
* *
77635 TTTTTTCAAAATTTCATTAAAAAGGATCACTT
64 TTTTTTCAAAATTTCATTAAAAAAGATCACTC
77667 ATTTATTAAATTATACTTTAATATAAAC
1 ATTTATTAAATTATACTTTAATATAAAC
77695 TTCGATAAAA
Statistics
Matches: 334, Mismatches: 64, Indels: 23
0.79 0.15 0.05
Matches are distributed among these distances:
94 14 0.04
95 191 0.57
96 119 0.36
97 9 0.03
98 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (95 bp):
ATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTTAATAAAAGACATCCATATTTT
TTTTCAAAATTTCATTAAAAAAGATCACTC
Found at i:77539 original size:191 final size:189
Alignment explanation
Indices: 77233--77694 Score: 662
Period size: 191 Copynumber: 2.4 Consensus size: 189
77223 CTCATATCTT
** *
77233 TAATAAAAGGTAGTCATAATTTTTTTTCAAAATTTCATTAAAAAAGATTATTTATTTATTAAATT
1 TAATAAAAGACAGTCAT-ATTTTTTTTCAAAATTTCATT-AAAAAGATTACTTATTTATTAAATT
* *
77298 ATATTTTAATATAAACCCCATCTCATACGTTTCATAAAAGACATCCATATT-TTTTTCTAAAATT
64 ATACTTTAATATAAACCCCACCTCATACGTTTCATAAAAGACATCCATATTGTTTTTC-AAAATT
* * * *
77362 TTATTAAAAATGATCACTCATTTATTGAATTATACTTTATTATAAAACTTGTCACACGCGTC
128 TTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCACACACATC
* *
77424 TAATAAAAGACAG-CTATATTTTTCTTCCAAAATTTCATTAGAAAAGATTACTCATTTATTAAAT
1 TAATAAAAGACAGTC-ATATTTTT-TTTCAAAATTTCATTA-AAAAGATTACTTATTTATTAAAT
*
77488 TATACTTTAATATAAACCCCACCTCATACGTTTGATAAAAAGTA-A-CCATATTGTTTTTCAAAA
63 TATACTTTAATATAAACCCCACCTCATACGTTTCAT-AAAAG-ACATCCATATTGTTTTTCAAAA
**
77551 TTTTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGTACACATC
126 TTTTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCACACACATC
* * *
77615 TGATAAAAGGCAGTCATATTTTTTTTCAAAATTTCATTAAAAAGGATCACTTATTTATTAAATTA
1 TAATAAAAGACAGTCATATTTTTTTTCAAAATTTCATTAAAAA-GATTACTTATTTATTAAATTA
77680 TACTTTAATATAAAC
65 TACTTTAATATAAAC
77695 TTCGATAAAA
Statistics
Matches: 244, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
189 4 0.02
190 57 0.23
191 169 0.69
192 13 0.05
193 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (189 bp):
TAATAAAAGACAGTCATATTTTTTTTCAAAATTTCATTAAAAAGATTACTTATTTATTAAATTAT
ACTTTAATATAAACCCCACCTCATACGTTTCATAAAAGACATCCATATTGTTTTTCAAAATTTTA
TTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCACACACATC
Found at i:77832 original size:179 final size:180
Alignment explanation
Indices: 77542--77868 Score: 428
Period size: 179 Copynumber: 1.8 Consensus size: 180
77532 ACCATATTGT
* * *
77542 TTTTCAAAATTTTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCG
1 TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
* * * * * * *
77607 TACACATCTGATAAAAGGCAGTCATATTTTTTTTCAAAATTTCATT-AAAAAGGATCACT-TATT
66 CACACATCTGACAAAAGGAAATAATATTTTTTTTCAAAAATTCATTAAAAAAAGATCACTCT-TT
77670 TATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATAC
130 TATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATAC
* * *
77721 TTTTCAAAATTTCATTAAAAATGATCACTTATTTATTAAATTATATTTTAATATAAAACTTATCG
1 TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
* * *
77786 CA-AGTATCTTACAAAATGAAATAAT-TTTTTTTTCAAAAAATTCATTAAAAAAAGATCACTCTT
66 CACA-CATCTGACAAAAGGAAATAATATTTTTTTTC-AAAAATTCATTAAAAAAAGATCACTCTT
* * *
77849 TTGTTAGATTATATTTTAAT
129 TTATTAAATTATACTTTAAT
77869 GTAAGTCCCC
Statistics
Matches: 125, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
178 10 0.08
179 84 0.67
180 30 0.24
181 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (180 bp):
TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
CACACATCTGACAAAAGGAAATAATATTTTTTTTCAAAAATTCATTAAAAAAAGATCACTCTTTT
ATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATAC
Found at i:78299 original size:8 final size:9
Alignment explanation
Indices: 78263--78299 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
78253 TTGGGTTTTC
78263 TTATATATA
1 TTATATATA
78272 -TATATATA
1 TTATATATA
78280 CTTATATATA
1 -TTATATATA
78290 TTATAT-TA
1 TTATATATA
78298 TT
1 TT
78300 TTTAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.46
9 6 0.23
10 8 0.31
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:79236 original size:13 final size:14
Alignment explanation
Indices: 79206--79236 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
79196 TAGGTCTATA
79206 TATTTATACATCTT
1 TATTTATACATCTT
79220 TATTTATACAT-TT
1 TATTTATACATCTT
79233 TATT
1 TATT
79237 AAAATTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATACATCTT
Found at i:80800 original size:27 final size:27
Alignment explanation
Indices: 80769--80827 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
80759 GATAATTTGG
80769 ACTTTTAATGCTCAAAACACCCTAAAA
1 ACTTTTAATGCTCAAAACACCCTAAAA
*
80796 ACTTTTAATGCTCAAAACACTCTAAAA
1 ACTTTTAATGCTCAAAACACCCTAAAA
80823 ACTTT
1 ACTTT
80828 CTATATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (27 bp):
ACTTTTAATGCTCAAAACACCCTAAAA
Found at i:82150 original size:2 final size:2
Alignment explanation
Indices: 82143--82169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
82133 AATGTTTTTG
82143 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
82170 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:82174 original size:2 final size:2
Alignment explanation
Indices: 82169--82198 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
82159 TCTCTCTCTC
82169 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82199 CATGTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83824 original size:36 final size:36
Alignment explanation
Indices: 83777--83848 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
83767 ATAACAAAGC
*
83777 TAATAAAGAATGGGACCATTCAGGCGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
83813 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
83849 CTTTGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.17
Consensus pattern (36 bp):
TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
Found at i:85487 original size:91 final size:94
Alignment explanation
Indices: 85279--85491 Score: 238
Period size: 91 Copynumber: 2.3 Consensus size: 94
85269 AGGAAGTCTT
** * * *
85279 ATGTAAATCCCCCCGCATGC-TTTGACAAAATCCACCCATATTTTTTTAAGAAATTCATTAAAAA
1 ATGTAAATCCCGTCGCATGCATTTGATAAAATCCAACCATATTTTTTTAAAAAATTCATTAAAAA
* * *
85343 AAGTTACTTATTTGTTAGATTATATTTTA
66 AAGTCACTTATTTATTAGATTATACTTTA
* * * * * *
85372 ATATAAATCCCGTCACACGTATTTGATAAAATGCAATCAT-TTTTTTTCAAAAAATTCA-T-AAA
1 ATGTAAATCCCGTCGCATGCATTTGATAAAATCCAACCATATTTTTTT-AAAAAATTCATTAAAA
*
85434 AAA-TCACTTATTTATTAGATTATACTTTG
65 AAAGTCACTTATTTATTAGATTATACTTTA
*
85463 ATGTAAATCCCGTTGCATGCATTTGATAA
1 ATGTAAATCCCGTCGCATGCATTTGATAA
85492 TACTACACCC
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
91 46 0.47
92 6 0.06
93 22 0.22
94 24 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (94 bp):
ATGTAAATCCCGTCGCATGCATTTGATAAAATCCAACCATATTTTTTTAAAAAATTCATTAAAAA
AAGTCACTTATTTATTAGATTATACTTTA
Found at i:86964 original size:23 final size:24
Alignment explanation
Indices: 86936--87005 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
86926 TTTCTTTCGT
86936 AAAAAATAAAAGAAAAAAGGAAA-
1 AAAAAATAAAAGAAAAAAGGAAAG
* * * *
86959 AAAAAAGAAATGGAAAAAGTAAAG
1 AAAAAATAAAAGAAAAAAGGAAAG
* * *
86983 AATAATTAAAATAAAAGAAGGAA
1 AAAAAATAAAAGAAAA-AAGGAA
87006 GAGGTCTATA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
23 19 0.56
24 10 0.29
25 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (24 bp):
AAAAAATAAAAGAAAAAAGGAAAG
Found at i:86982 original size:17 final size:15
Alignment explanation
Indices: 86943--86984 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
86933 CGTAAAAAAT
86943 AAAAGAAA-AAAGGA
1 AAAAGAAAGAAAGGA
*
86957 AAAAAAAAGAAATGGA
1 AAAAGAAAGAAA-GGA
86973 AAAAGTAAAGAA
1 AAAAG-AAAGAA
86985 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 3 0.13
16 7 0.30
17 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAGGA
Found at i:89827 original size:8 final size:8
Alignment explanation
Indices: 89814--89841 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
89804 CTTCATAATT
89814 TATACATA
1 TATACATA
89822 TATACATA
1 TATACATA
89830 TATACATA
1 TATACATA
89838 TATA
1 TATA
89842 TACATACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
TATACATA
Found at i:90881 original size:28 final size:31
Alignment explanation
Indices: 90817--90881 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 31
90807 CGTTTGATTT
* * *
90817 TAGCTTTCTATCATATCAATGTAGTTTGATTT
1 TAGCTTTCTATCATATCAAAGTAGGTTGA-TG
90849 TAGCTTTCTATCATATCAAAGT-GGTT-A-G
1 TAGCTTTCTATCATATCAAAGTAGGTTGATG
90877 TAGCT
1 TAGCT
90882 ATTTTACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
30 1 0.03
31 3 0.10
32 21 0.70
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (31 bp):
TAGCTTTCTATCATATCAAAGTAGGTTGATG
Found at i:95993 original size:94 final size:93
Alignment explanation
Indices: 95831--96002 Score: 222
Period size: 94 Copynumber: 1.8 Consensus size: 93
95821 TATTTTTCTC
* * * * *
95831 AAGAAATTCATTAAAAAGGTCCACTCACTTGTTGGATTATACTTTAATGTAGAACTCGTTGTATT
1 AAGAAATTCATTAAAAAGGTCCACTCACTTGTTGGATTATACTTTAATATAGAACGCGCTGCACT
95896 CGTTTGACAAAAAACAGTCATTTTTTTTT
66 CGTTTGA-AAAAAACAGTCATTTTTTTTT
* * * *
95925 AAGAAATTTATTAAAAAGGT-CACTTATTTGTTGGATTATATTTTTAATATA-AACGCTGCTGCA
1 AAGAAATTCATTAAAAAGGTCCACTCACTTGTTGGATTATA-CTTTAATATAGAACGC-GCTGCA
95988 CTCGTTTGAAAAAAA
64 CTCGTTTGAAAAAAA
96003 TGCAACCATT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
93 28 0.42
94 39 0.58
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (93 bp):
AAGAAATTCATTAAAAAGGTCCACTCACTTGTTGGATTATACTTTAATATAGAACGCGCTGCACT
CGTTTGAAAAAAACAGTCATTTTTTTTT
Found at i:97597 original size:18 final size:19
Alignment explanation
Indices: 97571--97606 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
97561 GATAAAAAAT
97571 AAAAGAAAAAAGAAAAAGG
1 AAAAGAAAAAAGAAAAAGG
*
97590 AAAA-AAAATAGAAAAAG
1 AAAAGAAAAAAGAAAAAG
97607 TAAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAAAGG
Found at i:97879 original size:19 final size:18
Alignment explanation
Indices: 97830--97879 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
97820 ATAAATATTA
* *
97830 AATATTTTTAAATCTTTT
1 AATATTATTAAATTTTTT
97848 AATATTATT---TTTTTCT
1 AATATTATTAAATTTTT-T
97864 AATATTATTAAATTTT
1 AATATTATTAAATTTT
97880 GGATCAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
18 8 0.31
19 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
AATATTATTAAATTTTTT
Found at i:100806 original size:2 final size:2
Alignment explanation
Indices: 100799--100827 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100789 AATTGGGTTT
100799 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100828 TATTTTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102443 original size:95 final size:95
Alignment explanation
Indices: 102206--102729 Score: 480
Period size: 95 Copynumber: 5.5 Consensus size: 95
102196 ATAAATTTAG
* * * * * * *
102206 TTTCGTTAAAAACGATAACTTATTTCTTAAATTATATTTTAATATAAATCCCACCTCATATC-TT
1 TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATA-CGTT
102270 TAATAAAAGGTA-AT-CATAATTTTTTT-TCAAAA
65 TAATAAAA-G-ACATCCAT-ATTTTTTTCT-AAAA
* * * * * * *
102302 TTTCATTAAAAAGGATTATTTATTTATTAAATTATATTTTAATATAAACCCCATCTCATACTTTT
1 TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTT
*
102367 CATAAAAGACATCCATATTTTTTTCTAAAA
66 AATAAAAGACATCCATATTTTTTTCTAAAA
* * * *** * *
102397 TTTCATTAAAAATGATCACTCATTTATTGAATTATACTTTATTATAAA--ACTTGTCACACGTCT
1 TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTT
* * *
102460 AATAAAAGACAGCTATATTTTTCTTCCAAAA
66 AATAAAAGACATCCATATTTTT-TTCTAAAA
*
102491 TTTCATTAGAAAA-GATTACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTT
1 TTTCATTA-AAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTT
*
102555 TGATAAAAAGTA-A-CCATATTATTTTTC-AAAA
65 TAAT-AAAAG-ACATCCATATT-TTTTTCTAAAA
* * * *** * * *
102586 TTTTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGT-ACACATC
1 TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACC-TCATACGTT
* *
102650 TGATAAAAGGCAGT-CATATTTTTTT-TCAAAA
65 TAATAAAAGACA-TCCATATTTTTTTCT-AAAA
*
102681 TTTCATTAAAAATGATCACTTATTTATTAAATTATACTTTAATATAAAC
1 TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAC
102730 TTCGATAAAA
Statistics
Matches: 359, Mismatches: 51, Indels: 37
0.80 0.11 0.08
Matches are distributed among these distances:
93 28 0.08
94 63 0.18
95 171 0.48
96 87 0.24
97 9 0.03
98 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (95 bp):
TTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAACCCCACCTCATACGTTT
AATAAAAGACATCCATATTTTTTTCTAAAA
Found at i:102596 original size:189 final size:189
Alignment explanation
Indices: 102283--102729 Score: 645
Period size: 189 Copynumber: 2.4 Consensus size: 189
102273 TAAAAGGTAA
* *
102283 TCATAATTTTTTTTCAAAATTTCATTAAAAAGGATTATTTATTTATTAAATTATATTTTAATATA
1 TCAT-ATTTTTTTTCAAAATTTCATTAAAAAGGATTACTTATTTATTAAATTATACTTTAATATA
* *
102348 AACCCCATCTCATACTTTTCATAAAAGACATCCATATTTTTTTCTAAAATTTCATTAAAAATGAT
65 AACCCCACCTCATACGTTTCATAAAAGACATCCATATTTTTTTCTAAAATTTCATTAAAAATGAT
* * *
102413 CACTCATTTATTGAATTATACTTTATTATAAAACTTGTC-ACACGTCTAATAAAAGACAG
130 CACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGACACATCTAATAAAAGACAG
* *
102472 -CTATATTTTTCTTCCAAAATTTCATTAGAAAA-GATTACTCATTTATTAAATTATACTTTAATA
1 TC-ATATTTTT-TTTCAAAATTTCATTA-AAAAGGATTACTTATTTATTAAATTATACTTTAATA
* *
102535 TAAACCCCACCTCATACGTTTGATAAAAAGTA-A-CCATATTATTTTTC-AAAATTTTATTAAAA
63 TAAACCCCACCTCATACGTTTCAT-AAAAG-ACATCCATATT-TTTTTCTAAAATTTCATTAAAA
* *
102597 ATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGTACACATCTGATAAAAGGCA
125 ATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCG-ACACATCTAATAAAAGACA
102662 G
189 G
* *
102663 TCATATTTTTTTTCAAAATTTCATTAAAAATGATCACTTATTTATTAAATTATACTTTAATATAA
1 TCATATTTTTTTTCAAAATTTCATTAAAAAGGATTACTTATTTATTAAATTATACTTTAATATAA
102728 AC
66 AC
102730 TTCGATAAAA
Statistics
Matches: 232, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
188 7 0.03
189 133 0.57
190 65 0.28
191 26 0.11
192 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (189 bp):
TCATATTTTTTTTCAAAATTTCATTAAAAAGGATTACTTATTTATTAAATTATACTTTAATATAA
ACCCCACCTCATACGTTTCATAAAAGACATCCATATTTTTTTCTAAAATTTCATTAAAAATGATC
ACTCATTTATTGAATTATACTTTAATATAAAACTTGCCGACACATCTAATAAAAGACAG
Found at i:102867 original size:179 final size:180
Alignment explanation
Indices: 102577--102903 Score: 419
Period size: 179 Copynumber: 1.8 Consensus size: 180
102567 ACCATATTAT
* * *
102577 TTTTCAAAATTTTATTAAAAATGATCACTCATTTATTGAATTATACTTTAATATAAAACTTGCCG
1 TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
* * * * * * *
102642 TACACATCTGATAAAAGGCAGTCATATTTTTTTTCAAAATTTCATT-AAAAATGATCACT-TATT
66 CACACATCTGACAAAAGGAAATAATATTTTTTTTCAAAAATTCATTAAAAAAAGATCACTCT-TT
102705 TATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATTC
130 TATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATTC
* * * *
102756 TTTTCAAAATTTCATTAAAAATGATCACTTATTTATTAAATTATATTTTAATATAAAGCTTATCG
1 TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
* * *
102821 CA-AGTATCTTACAAAATGAAATAAT-TTTTTTTTCAAAAAATTCATTAAAAAAAGATCACTCTT
66 CACA-CATCTGACAAAAGGAAATAATATTTTTTTTC-AAAAATTCATTAAAAAAAGATCACTCTT
* * *
102884 TTGTTAGATTATATTTTAAT
129 TTATTAAATTATACTTTAAT
102904 GTAAGTCCCC
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
178 10 0.08
179 83 0.67
180 30 0.24
181 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (180 bp):
TTTTCAAAATTTCATTAAAAATGATCACTCATTTATTAAATTATACTTTAATATAAAACTTACCG
CACACATCTGACAAAAGGAAATAATATTTTTTTTCAAAAATTCATTAAAAAAAGATCACTCTTTT
ATTAAATTATACTTTAATATAAACTTCGATAAAAAGCAATTATACTATTC
Found at i:103317 original size:8 final size:9
Alignment explanation
Indices: 103281--103317 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
103271 TTGGGTTTTC
103281 TTATATATA
1 TTATATATA
103290 -TATATATA
1 TTATATATA
103298 CTTATATATA
1 -TTATATATA
103308 TTATAT-TA
1 TTATATATA
103316 TT
1 TT
103318 TTTAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.46
9 6 0.23
10 8 0.31
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:104255 original size:13 final size:14
Alignment explanation
Indices: 104225--104255 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
104215 TAGATCTATA
104225 TATTTATACATCTT
1 TATTTATACATCTT
104239 TATTTATACAT-TT
1 TATTTATACATCTT
104252 TATT
1 TATT
104256 AAAATTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATACATCTT
Found at i:105822 original size:27 final size:27
Alignment explanation
Indices: 105791--105849 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
105781 GATAATTTGG
105791 ACTTTTAATGCTCAAAACACTCTAAAA
1 ACTTTTAATGCTCAAAACACTCTAAAA
105818 ACTTTTAATGCTCAAAACACTCTAAAA
1 ACTTTTAATGCTCAAAACACTCTAAAA
105845 ACTTT
1 ACTTT
105850 CTATATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.32
Consensus pattern (27 bp):
ACTTTTAATGCTCAAAACACTCTAAAA
Found at i:107175 original size:2 final size:2
Alignment explanation
Indices: 107168--107194 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107158 AATGTTTTTG
107168 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
107195 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:107199 original size:2 final size:2
Alignment explanation
Indices: 107194--107223 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
107184 TCTCTCTCTC
107194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107224 CATGTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108849 original size:36 final size:36
Alignment explanation
Indices: 108802--108873 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
108792 ATAACAAAGC
*
108802 TAATAAAGAATGGGACCATTCAGGCGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
108838 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
1 TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
108874 CTTTGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.17
Consensus pattern (36 bp):
TAATAAAGAATGGGACCATTCAGACGCGGAAGTAGG
Found at i:109855 original size:94 final size:94
Alignment explanation
Indices: 109694--109910 Score: 434
Period size: 94 Copynumber: 2.3 Consensus size: 94
109684 TTTCATGGTT
109694 AACATCTAAGTCAAGGTCTCCTAAATAATAATGCAGTCTAGACATCAACTGTGATGACAATGTAC
1 AACATCTAAGTCAAGGTCTCCTAAATAATAATGCAGTCTAGACATCAACTGTGATGACAATGTAC
109759 ATTCCACTTTCCTCCGAAACTTGATAGGA
66 ATTCCACTTTCCTCCGAAACTTGATAGGA
109788 AACATCTAAGTCAAGGTCTCCTAAATAATAATGCAGTCTAGACATCAACTGTGATGACAATGTAC
1 AACATCTAAGTCAAGGTCTCCTAAATAATAATGCAGTCTAGACATCAACTGTGATGACAATGTAC
109853 ATTCCACTTTCCTCCGAAACTTGATAGGA
66 ATTCCACTTTCCTCCGAAACTTGATAGGA
109882 AACATCTAAGTCAAGGTCTCCTAAATAAT
1 AACATCTAAGTCAAGGTCTCCTAAATAAT
109911 TTCTCTCTTA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 123 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (94 bp):
AACATCTAAGTCAAGGTCTCCTAAATAATAATGCAGTCTAGACATCAACTGTGATGACAATGTAC
ATTCCACTTTCCTCCGAAACTTGATAGGA
Found at i:112100 original size:17 final size:15
Alignment explanation
Indices: 112062--112102 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
112052 CGTAAAAAAT
112062 AAAAGAAA-AAAGGA
1 AAAAGAAAGAAAGGA
112076 AAAA-AAAGAAATGGA
1 AAAAGAAAGAAA-GGA
112091 AAAAGTAAAGAA
1 AAAAG-AAAGAA
112103 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 7 0.30
17 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAGGA
Found at i:114944 original size:8 final size:8
Alignment explanation
Indices: 114931--114958 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
114921 CTTCATAATT
114931 TATACATA
1 TATACATA
114939 TATACATA
1 TATACATA
114947 TATACATA
1 TATACATA
114955 TATA
1 TATA
114959 TACATACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
TATACATA
Found at i:116001 original size:28 final size:31
Alignment explanation
Indices: 115937--116001 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 31
115927 CGTTTGATTT
* * *
115937 TAGCTTTCTATCATATCAATGTAGTTTGATTT
1 TAGCTTTCTATCATATCAAAGTAGGTTGA-TG
115969 TAGCTTTCTATCATATCAAAGT-GGTT-A-G
1 TAGCTTTCTATCATATCAAAGTAGGTTGATG
115997 TAGCT
1 TAGCT
116002 ATTTTACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
30 1 0.03
31 3 0.10
32 21 0.70
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (31 bp):
TAGCTTTCTATCATATCAAAGTAGGTTGATG
Found at i:118124 original size:2 final size:2
Alignment explanation
Indices: 118117--118145 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118107 TTGGTTTTAA
118117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118146 ACTATGTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118456 original size:2 final size:2
Alignment explanation
Indices: 118419--118445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118409 TTATTAACAT
118419 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
118446 TTGTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123697 original size:21 final size:21
Alignment explanation
Indices: 123657--123697 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
123647 AGTAGAATAT
*
123657 AAAAAAATAAATTGATTATGA
1 AAAAAAATAAATTGAATATGA
123678 AAAAAAATTAAATT-AATATG
1 AAAAAAA-TAAATTGAATATG
123698 GCAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAAAATAAATTGAATATGA
Found at i:125341 original size:30 final size:29
Alignment explanation
Indices: 125307--125368 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
125297 ATAAGTTATT
* *
125307 AAAAAGTACAAGAATTTTTTTTAAGATGAA
1 AAAAAGCACAAGAATTTTTGTTAA-ATGAA
*
125337 AAAAAGCACAAGAATTTTTGTTCAATGAA
1 AAAAAGCACAAGAATTTTTGTTAAATGAA
125366 AAA
1 AAA
125369 TTTGAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (29 bp):
AAAAAGCACAAGAATTTTTGTTAAATGAA
Found at i:126500 original size:2 final size:2
Alignment explanation
Indices: 126493--126520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
126483 TACTTTTTAA
126493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126521 TGGAACCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127428 original size:14 final size:13
Alignment explanation
Indices: 127409--127442 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
127399 AGTTTGTTGA
127409 TTTTTTTA-ATTCT
1 TTTTTTTAGATT-T
127422 TTTTTTTAGATTT
1 TTTTTTTAGATTT
127435 TTTTTTTA
1 TTTTTTTA
127443 AAAAAAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTTAGATTT
Found at i:128266 original size:2 final size:2
Alignment explanation
Indices: 128259--128291 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
128249 TGCATTGCTC
128259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128292 CTCATTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:129893 original size:6 final size:6
Alignment explanation
Indices: 129882--129913 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
129872 ACATACTCAA
*
129882 AATTAC AATTAC AATTAC AATTAC AATAAC AA
1 AATTAC AATTAC AATTAC AATTAC AATTAC AA
129914 CTTAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (6 bp):
AATTAC
Found at i:130515 original size:2 final size:2
Alignment explanation
Indices: 130508--130539 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
130498 TACTTTTCAA
130508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130540 TGGAACCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131442 original size:14 final size:13
Alignment explanation
Indices: 131423--131457 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
131413 AGTTTGTTGA
131423 TTTTTTTTA-ATT
1 TTTTTTTTAGATT
131435 CTTTTTTTTAGATT
1 -TTTTTTTTAGATT
131449 TTTTTTTTA
1 TTTTTTTTA
131458 AAAAAGCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTTTTTAGATT
Found at i:137904 original size:9 final size:9
Alignment explanation
Indices: 137874--137937 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
137864 AAACAATGAT
137874 AAAAATTAA
1 AAAAATTAA
*
137883 AAATAATTCA
1 AAA-AATTAA
*
137893 AAAAATTTA
1 AAAAATTAA
*
137902 AAAAATCAA
1 AAAAATTAA
*
137911 AAAGATCT--
1 AAAAAT-TAA
137919 AAAAATTAA
1 AAAAATTAA
*
137928 AAAAAATAA
1 AAAAATTAA
137937 A
1 A
137938 TAATACAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 29 0.67
10 8 0.19
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAAATTAA
Found at i:137930 original size:18 final size:17
Alignment explanation
Indices: 137887--137931 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
137877 AATTAAAAAT
*
137887 AATTCAAAAAATTTAAA
1 AATTCAAAAAATCTAAA
*
137904 AAATCAAAAAGATCTAAA
1 AATTCAAAAA-ATCTAAA
137922 AATT-AAAAAA
1 AATTCAAAAAA
137932 AATAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 9 0.38
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (17 bp):
AATTCAAAAAATCTAAA
Found at i:138768 original size:11 final size:11
Alignment explanation
Indices: 138749--138803 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
138739 GAATTCAACT
138749 AAATAATTATC
1 AAATAATTATC
* *
138760 AAATGATTATT
1 AAATAATTATC
*
138771 TAAT--TTATC
1 AAATAATTATC
138780 AAAAATAATTATC
1 --AAATAATTATC
138793 AAATAATTATC
1 AAATAATTATC
138804 TTAATAACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 4 0.11
11 26 0.74
13 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (11 bp):
AAATAATTATC
Found at i:138820 original size:33 final size:32
Alignment explanation
Indices: 138749--138820 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
138739 GAATTCAACT
* *
138749 AAATAATTATCAAATGATTATTTAATTTATCAA
1 AAATAATTATCAAATAATTATTTAA-TTAACAA
138782 AAATAATTATCAAATAATTATCTTAA-TAACAA
1 AAATAATTATCAAATAATTAT-TTAATTAACAA
138814 AGAATAA
1 A-AATAA
138821 AATCAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 6 0.17
33 25 0.71
34 4 0.11
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (32 bp):
AAATAATTATCAAATAATTATTTAATTAACAA
Found at i:144051 original size:28 final size:27
Alignment explanation
Indices: 143996--144066 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
143986 GCCACCCATT
143996 TATTTGTCAAAAATGGTGGTTATTTTG
1 TATTTGTCAAAAATGGTGGTTATTTTG
*
144023 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TATTTGTCAAAAATGGTGGTTAT--TTTG
*
144051 TATTTGTCAAATATGG
1 TATTTGTCAAAAATGG
144067 AGGCTTGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (27 bp):
TATTTGTCAAAAATGGTGGTTATTTTG
Found at i:148524 original size:28 final size:27
Alignment explanation
Indices: 148469--148539 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
148459 GCCACCCATT
148469 TATTTGTCAAAAATGGTGGTTATTTTG
1 TATTTGTCAAAAATGGTGGTTATTTTG
*
148496 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TATTTGTCAAAAATGGTGGTTAT--TTTG
*
148524 TATTTGTCAAATATGG
1 TATTTGTCAAAAATGG
148540 AGGCTTGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (27 bp):
TATTTGTCAAAAATGGTGGTTATTTTG
Found at i:151403 original size:21 final size:20
Alignment explanation
Indices: 151377--151422 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
151367 AAATGCATCA
*
151377 AAAAAATAAAATACATTTATT
1 AAAAAACAAAATA-ATTTATT
* *
151398 AAAAAACATAATAATTTTTT
1 AAAAAACAAAATAATTTATT
151418 AAAAA
1 AAAAA
151423 TGTCTTTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAACAAAATAATTTATT
Found at i:152653 original size:19 final size:19
Alignment explanation
Indices: 152625--152663 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
152615 GTAAGTTAAC
152625 AACTAGTATTA-AAAACTAT
1 AACTAGTATTATAAAA-TAT
*
152644 AACTATTATTATAAAATAT
1 AACTAGTATTATAAAATAT
152663 A
1 A
152664 TAGTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (19 bp):
AACTAGTATTATAAAATAT
Found at i:152665 original size:21 final size:20
Alignment explanation
Indices: 152641--152680 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
152631 TATTAAAAAC
152641 TATAACTATTATTATAAAATA
1 TATAACTA-TATTATAAAATA
**
152662 TATAGTTATATTATAAAAT
1 TATAACTATATTATAAAAT
152681 TAAATTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TATAACTATATTATAAAATA
Found at i:153191 original size:18 final size:20
Alignment explanation
Indices: 153165--153206 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
153155 AGGTCTAGTA
153165 AATATATATTAATATA-ATAT
1 AATATAT-TTAATATATATAT
*
153185 AATATATTTATTATATATAT
1 AATATATTTAATATATATAT
153205 AA
1 AA
153207 AAAAGTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATTTAATATATATAT
Found at i:153604 original size:129 final size:129
Alignment explanation
Indices: 153351--153614 Score: 442
Period size: 129 Copynumber: 2.0 Consensus size: 129
153341 AATTATCTTT
153351 AAAAGTTACACTTATTATCTTCAATTTTAAATTAATATTTCATTTTCTTTTTTTTTTGGATAATT
1 AAAAGTTACACTTATTATCTTCAATTTTAAATTAATATTTCATTTTC-TTTTTTTTTGGATAATT
* * * *
153416 AGATTAATATTTTATTTTTATCCATAATTTTTAAAAGTTTAATATATCAATATCTATAATTTTTC
65 AGATTAATATTTTATTTTCATCCATAACTTTTAAAAGTTTAAAATATCAAAATCTATAATTTTTC
*
153481 AAAAGTTACACTT-TTCATCTTCGATTTTAAATTAATATTTCATTTTC-TTTTTTTTGGATAATT
1 AAAAGTTACACTTATT-ATCTTCAATTTTAAATTAATATTTCATTTTCTTTTTTTTTGGATAATT
153544 AGATTAATATTTTCATTTTCATCCATAACTTTTAAAAGTTTAAAATATCAAAATCTATAATTTTT
65 AGATTAATATTTT-ATTTTCATCCATAACTTTTAAAAGTTTAAAATATCAAAATCTATAATTTTT
153609 C
129 C
153610 AAAAG
1 AAAAG
153615 ATTTTATTGT
Statistics
Matches: 127, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
128 29 0.23
129 55 0.43
130 43 0.34
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.51
Consensus pattern (129 bp):
AAAAGTTACACTTATTATCTTCAATTTTAAATTAATATTTCATTTTCTTTTTTTTTGGATAATTA
GATTAATATTTTATTTTCATCCATAACTTTTAAAAGTTTAAAATATCAAAATCTATAATTTTTC
Found at i:154441 original size:29 final size:30
Alignment explanation
Indices: 154391--154492 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 30
154381 AAAGCCATGA
* *
154391 ATGA-AAATTAAACATTAGTAAAGATTATGG
1 ATGATAAA-TAAACCTTACTAAAGATTATGG
* * *
154421 ATAATAAATACAA-CTT-CTAAAGGTTATAG
1 ATGATAAATA-AACCTTACTAAAGATTATGG
*
154450 ATGA-AAATGAAACCTTACTAAAAAGTTATGG
1 ATGATAAAT-AAACCTTACTAAAGA-TTATGG
154481 ATGATAAATAAA
1 ATGATAAATAAA
154493 TGAAAATAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
28 6 0.11
29 17 0.30
30 12 0.21
31 17 0.30
32 4 0.07
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (30 bp):
ATGATAAATAAACCTTACTAAAGATTATGG
Found at i:155415 original size:30 final size:28
Alignment explanation
Indices: 155344--155420 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
155334 TTTTATTTTT
* *
155344 TCAAATAAGTCTTTATATTTTTATTATAT
1 TCAAATAAATCTTTAT-TTTTTATTATAC
* * *
155373 TTAAATATATCTTTATTTTTTGATTTGTAC
1 TCAAATAAATCTTTATTTTTT-A-TTATAC
155403 TCAAATAAATCTTTATTT
1 TCAAATAAATCTTTATTT
155421 AAATAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.13
29 14 0.36
30 20 0.51
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (28 bp):
TCAAATAAATCTTTATTTTTTATTATAC
Found at i:157275 original size:2 final size:2
Alignment explanation
Indices: 157268--157293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
157258 AATGGGACTG
157268 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
157294 TGGATTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159364 original size:18 final size:17
Alignment explanation
Indices: 159329--159408 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 17
159319 AATTAGTATC
159329 AATCACAAA-TTTTAAA
1 AATCACAAATTTTTAAA
*
159345 AATTACAAATTTTCTAAA
1 AATCACAAATTTT-TAAA
* **
159363 AATCACAGATTTTTAGG
1 AATCACAAATTTTTAAA
* * *
159380 AATTATAAATTTTT-AT
1 AATCACAAATTTTTAAA
*
159396 AATCACAGATTTT
1 AATCACAAATTTT
159409 CAACCCCAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
16 18 0.37
17 16 0.33
18 15 0.31
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (17 bp):
AATCACAAATTTTTAAA
Found at i:159376 original size:19 final size:18
Alignment explanation
Indices: 159329--159375 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
159319 AATTAGTATC
159329 AATCACAAA-TTT-TAAA
1 AATCACAAATTTTCTAAA
*
159345 AATTACAAATTTTCTAAA
1 AATCACAAATTTTCTAAA
*
159363 AATCACAGATTTT
1 AATCACAAATTTT
159376 TAGGAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 15 0.58
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (18 bp):
AATCACAAATTTTCTAAA
Found at i:163692 original size:17 final size:17
Alignment explanation
Indices: 163655--163719 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
163645 GATCAGCATC
*
163655 AATCACAGATTT-TAGG
1 AATCACAGATTTCTAAG
163671 AATCACAGATTTCTAAG
1 AATCACAGATTTCTAAG
* *
163688 AATCACAAATTTTTAAG
1 AATCACAGATTTCTAAG
* *
163705 AATTACATATTTCTA
1 AATCACAGATTTCTA
163720 TAATTACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
16 12 0.29
17 30 0.71
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (17 bp):
AATCACAGATTTCTAAG
Found at i:163729 original size:33 final size:34
Alignment explanation
Indices: 163655--163733 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
163645 GATCAGCATC
* *
163655 AATCACAGA-TTTTAGGAATCACAGATTTCTAAG
1 AATCACAAATTTTTAAGAATCACAGATTTCTAAG
* * *
163688 AATCACAAATTTTTAAGAATTACATATTTCT-AT
1 AATCACAAATTTTTAAGAATCACAGATTTCTAAG
*
163721 AATTACAAATTTT
1 AATCACAAATTTT
163734 CAACCTTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 21 0.54
34 18 0.46
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.38
Consensus pattern (34 bp):
AATCACAAATTTTTAAGAATCACAGATTTCTAAG
Found at i:163734 original size:17 final size:18
Alignment explanation
Indices: 163680--163734 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
163670 GAATCACAGA
*
163680 TTTCTAAGAATCACAAAT
1 TTTCTAAGAATTACAAAT
*
163698 TTT-TAAGAATTACATA-
1 TTTCTAAGAATTACAAAT
*
163714 TTTCT-ATAATTACAAAT
1 TTTCTAAGAATTACAAAT
163731 TTTC
1 TTTC
163735 AACCTTAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 12 0.39
17 16 0.52
18 3 0.10
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (18 bp):
TTTCTAAGAATTACAAAT
Found at i:166107 original size:28 final size:28
Alignment explanation
Indices: 166067--166123 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
166057 TAACAGAATG
*
166067 AGTATATATTTATTTTATATAATTGTTA
1 AGTAAATATTTATTTTATATAATTGTTA
*
166095 AGTAAATATTTATTTTATATACTTGTTA
1 AGTAAATATTTATTTTATATAATTGTTA
166123 A
1 A
166124 AGTTGTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (28 bp):
AGTAAATATTTATTTTATATAATTGTTA
Found at i:166766 original size:69 final size:70
Alignment explanation
Indices: 166610--166790 Score: 222
Period size: 70 Copynumber: 2.6 Consensus size: 70
166600 CTAACATATC
* * * * * * *
166610 TTAAGTATTCAAATCTCTCTAACAGTCAGATTTC-GGAAAATATATTTCCCTTTAAGAGTTTAAT
1 TTAAGTATTTAGATCTCTCTAACAATCAGTTTTCTGG-AAATATATTCCCCCTGAAGAGTTTAAT
166674 ATCCTT
65 ATCCTT
* *
166680 TTGAGTATTTAGATCTCTCTAACAATCAGTTTTCTGGAAATATATTCCCCCTGATGAGTTTAATA
1 TTAAGTATTTAGATCTCTCTAACAATCAGTTTTCTGGAAATATATTCCCCCTGAAGAGTTTAATA
166745 T-CTT
66 TCCTT
** * *
166749 TTAAGTATTTAGATCTCTCTTTCAATTAGTTTTCTGAAAATA
1 TTAAGTATTTAGATCTCTCTAACAATCAGTTTTCTGGAAATA
166791 CATTTGTCCT
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 40 0.42
70 54 0.56
71 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (70 bp):
TTAAGTATTTAGATCTCTCTAACAATCAGTTTTCTGGAAATATATTCCCCCTGAAGAGTTTAATA
TCCTT
Found at i:169167 original size:7 final size:6
Alignment explanation
Indices: 169157--169266 Score: 61
Period size: 6 Copynumber: 18.7 Consensus size: 6
169147 AATATATAAA
** * * **
169157 ATATTT CATATTT ATATAA ATTTTT ATATTT ATAATTC ATA-TT ATATAA
1 ATATTT -ATATTT ATATTT ATATTT ATATTT AT-ATTT ATATTT ATATTT
* **
169206 AT-TTT A-ATAT ATATTT ATACGT ATA-TT ATATTT A-ATTAT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATT-T ATATTT
169251 -TATTT CATATTT ATAT
1 ATATTT -ATATTT ATAT
169267 AATCATATTG
Statistics
Matches: 77, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
5 21 0.27
6 37 0.48
7 19 0.25
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (6 bp):
ATATTT
Found at i:169185 original size:18 final size:20
Alignment explanation
Indices: 169149--169190 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
169139 ATTATAATAA
169149 TATATAAAATATTTCATATT
1 TATATAAAATATTTCATATT
*
169169 TATAT-AAAT-TTTTATATT
1 TATATAAAATATTTCATATT
169187 TATA
1 TATA
169191 ATTCATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 4 0.19
20 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATAAAATATTTCATATT
Found at i:169265 original size:30 final size:30
Alignment explanation
Indices: 169158--169266 Score: 82
Period size: 31 Copynumber: 3.5 Consensus size: 30
169148 ATATATAAAA
* *
169158 TATTTCATATTTATA-TAAATTTTTATATTT
1 TATTTCATATTTATATTTAA-TTATATATTT
*
169188 ATAATTCATATTATATAAATTTTAA-TATATA-TT
1 -TATTTCATATT-TAT--A-TTTAATTATATATTT
* *
169221 TA-TACGTATATTATATTTAATTATATATTT
1 TATTTCATAT-TTATATTTAATTATATATTT
169251 TATTTCATATTTATAT
1 TATTTCATATTTATAT
169267 AATCATATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
28 5 0.08
29 7 0.11
30 10 0.16
31 23 0.37
32 6 0.10
33 2 0.03
34 6 0.10
36 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTTCATATTTATATTTAATTATATATTT
Found at i:170684 original size:15 final size:15
Alignment explanation
Indices: 170664--170712 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
170654 TATAAATACA
170664 TTTATGATATTATAT
1 TTTATGATATTATAT
170679 TTTATGAATAATTAT-T
1 TTTATG-AT-ATTATAT
170695 TTTAAT-ATATTA-AT
1 TTT-ATGATATTATAT
170709 TTTA
1 TTTA
170713 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 8 0.27
15 8 0.27
16 6 0.20
17 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
TTTATGATATTATAT
Found at i:174776 original size:17 final size:18
Alignment explanation
Indices: 174744--174777 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
174734 AATCCTTTAA
174744 ATAACAAAATTATCATTG
1 ATAACAAAATTATCATTG
*
174762 ATAATAAAA-TATCATT
1 ATAACAAAATTATCATT
174778 ATATGCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAACAAAATTATCATTG
Found at i:175572 original size:15 final size:15
Alignment explanation
Indices: 175552--175605 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
175542 TATCTATAAA
175552 TATATTTTATGATAT
1 TATATTTTATGATAT
175567 TATATTTTATGAATAAT
1 TATATTTTATG-AT-AT
175584 TAT-TTTTGAT-ATAT
1 TATATTTT-ATGATAT
175598 TA-ATTTTA
1 TATATTTTA
175606 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 8 0.23
15 13 0.37
16 6 0.17
17 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
TATATTTTATGATAT
Found at i:175585 original size:17 final size:16
Alignment explanation
Indices: 175547--175590 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
175537 AAAAGTATCT
*
175547 ATAAATATATTTTATG
1 ATAATTATATTTTATG
175563 AT-ATTATATTTTATG
1 ATAATTATATTTTATG
175578 AATAATTAT-TTTT
1 -ATAATTATATTTT
175591 GATATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 8 0.32
17 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (16 bp):
ATAATTATATTTTATG
Found at i:176242 original size:17 final size:18
Alignment explanation
Indices: 176210--176243 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
176200 AAGCCTTCAA
176210 ATAATAAAATTATCATTG
1 ATAATAAAATTATCATTG
176228 ATAATAAAA-TATCATT
1 ATAATAAAATTATCATT
176244 ATATACTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATAAAATTATCATTG
Found at i:176998 original size:15 final size:15
Alignment explanation
Indices: 176978--177028 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
176968 CTATAAATAC
176978 ATTTTATGATATTAT
1 ATTTTATGATATTAT
176993 ATTTTATGAATAATTAT
1 ATTTTATG-AT-ATTAT
177010 -TTTTGAT-ATATTA-
1 ATTTT-ATGATATTAT
177023 ATTTTA
1 ATTTTA
177029 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 8 0.25
15 10 0.31
16 6 0.19
17 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTTATGATATTAT
Found at i:179412 original size:15 final size:16
Alignment explanation
Indices: 179394--179423 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
179384 ATTTCCTTTC
179394 TTCTTTCTT-TTTATT
1 TTCTTTCTTGTTTATT
179409 TTCTTTCTTGTTTAT
1 TTCTTTCTTGTTTAT
179424 CTATCAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTTTCTTGTTTATT
Found at i:187123 original size:23 final size:23
Alignment explanation
Indices: 187097--187158 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
187087 TCAAATTAGA
* *
187097 TTTGACTGATACGTTGATTGGTT
1 TTTGACCGATACATTGATTGGTT
187120 TTTGACCGATACATTGATTGGTT
1 TTTGACCGATACATTGATTGGTT
* *
187143 TTTGACCAATTCATTG
1 TTTGACCGATACATTG
187159 GTTTTAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (23 bp):
TTTGACCGATACATTGATTGGTT
Found at i:188265 original size:2 final size:2
Alignment explanation
Indices: 188258--188285 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
188248 AAAATAGGAA
188258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188286 GAAAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191795 original size:2 final size:2
Alignment explanation
Indices: 191788--191816 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
191778 TGCATTGCTC
191788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
191817 AAAGATATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.